Ubd ubiquitin D [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ubdprovided by RGD
Official Full Name: ubiquitin Dprovided by RGD
Primary source: RGD:69418
See related: Ensembl:ENSRNOG00000000767 AllianceGenome:RGD:69418
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable proteasome binding activity. Involved in response to hypoxia; response to ischemia; and response to organonitrogen compound. Predicted to be located in aggresome; cytoplasm; and nuclear lumen. Predicted to be active in nucleus. Used to study myocardial infarction. Biomarker of myocardial infarction. Orthologous to human UBD (ubiquitin D). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 624.8), Liver (RPKM 467.7) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (1390734..1392685, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (1385487..1387438, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (1876175..1878126, complement)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Ubiquitin-like protein FAT10 suppresses SIRT1-mediated autophagy to protect against ischemic myocardial injury.
Title: Ubiquitin-like protein FAT10 suppresses SIRT1-mediated autophagy to protect against ischemic myocardial injury.
These data prove that Ubd is a diabetes susceptibility gene, providing insight into the interplay of multiple genes and environmental factors in T1D susceptibility.
Title: Diubiquitin (Ubd) is a susceptibility gene for virus-triggered autoimmune diabetes in rats.
FAT10 protects cardiac myocytes against apoptosis.
Title: FAT10 protects cardiac myocytes against apoptosis.
down-regulation of expression alleviates allergic symptoms
Title: Transcriptional microarray analysis reveals suppression of histamine signaling by Kujin alleviates allergic symptoms through down-regulation of FAT10 expression.

Submit: New GeneRIF Correction

General gene information

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Markers

D9S1880 (e-PCR), detects polymorphism
- UniSTS:73745

RH130544 (e-PCR)
- UniSTS:213828

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables proteasome binding	IBA Inferred from Biological aspect of Ancestor more info
enables proteasome binding	IEA Inferred from Electronic Annotation more info
enables proteasome binding	ISO Inferred from Sequence Orthology more info
enables proteasome binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in aggresome assembly	IEA Inferred from Electronic Annotation more info
involved_in aggresome assembly	ISO Inferred from Sequence Orthology more info
involved_in aggresome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in myeloid dendritic cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in myeloid dendritic cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in myeloid dendritic cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of apoptotic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mitotic cell cycle phase transition	IEA Inferred from Electronic Annotation more info
involved_in regulation of mitotic cell cycle phase transition	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitotic cell cycle phase transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to ischemia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to tumor necrosis factor	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to tumor necrosis factor	IEA Inferred from Electronic Annotation more info
involved_in response to tumor necrosis factor	ISO Inferred from Sequence Orthology more info
involved_in response to type II interferon	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to type II interferon	IEA Inferred from Electronic Annotation more info
involved_in response to type II interferon	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in aggresome	IEA Inferred from Electronic Annotation more info
located_in aggresome	ISO Inferred from Sequence Orthology more info
located_in aggresome	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in fibrillar center	IEA Inferred from Electronic Annotation more info
located_in fibrillar center	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: ubiquitin D

Names: diubiquitin; ubiquitin-like protein FAT10

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.